IQ-TREE multicore version 2.0.3 for Linux 64-bit built Apr 26 2020
Developed by Bui Quang Minh, Nguyen Lam Tung, Olga Chernomor,
Heiko Schmidt, Dominik Schrempf, Michael Woodhams.

Host:    cn34 (AVX2, FMA3, 125 GB RAM)
Command: /home/smg655/.conda/envs/iqtree/bin/iqtree -t All_Species_m2_AllMapped_edited.nwk -s All_Species_m2_pseudogene.nexus --scf 100 --prefix concord_pseudogene_ref -T 2
Seed:    43432 (Using SPRNG - Scalable Parallel Random Number Generator)
Time:    Mon May  3 12:02:31 2021
Kernel:  AVX+FMA - 2 threads (2 CPU cores detected)

Reading alignment file All_Species_m2_pseudogene.nexus ... Nexus format detected
Alignment has 26 sequences with 425 columns, 407 distinct patterns
424 parsimony-informative, 0 singleton sites, 0 constant sites
        Gap/Ambiguity  Composition  p-value
   1  ActMar    1.88%    passed     96.36%
   2  AldGig    1.65%    passed      7.37%
   3  ApaSpi    1.88%    passed     36.65%
   4  BatTri   47.76%    passed     90.49%
   5  CarIns    2.59%    passed     97.04%
   6  CheAbi   11.76%    passed     23.88%
   7  CheMyd    1.41%    passed     88.96%
   8  CheSer    6.35%    passed     80.76%
   9  ChrPic    4.71%    passed     98.65%
  10  CuoAmb    1.65%    passed     83.19%
  11  CuoMcc    0.47%    passed     77.47%
  12  DerCor    1.18%    passed     48.23%
  13  DerMaw    1.41%    passed     82.96%
  14  EmyOrb   41.88%    passed     98.11%
  15  EmySub    2.12%    passed     98.56%
  16  GopAga    0.24%    passed     29.79%
  17  MalTer    2.12%    passed     99.13%
  18  MauRee    1.18%    passed     82.64%
  19  MesTub    2.59%    passed     72.04%
  20  PelCas    7.53%    passed     31.40%
  21  PelSin    2.12%    passed     10.31%
  22  PlaMeg    0.00%    passed     77.35%
  23  PodExp   12.47%    passed     30.10%
  24  SteCar    2.59%    passed     48.88%
  25  TerCar    1.41%    passed     93.59%
  26  TraScr    1.18%    passed     92.10%
****  TOTAL     6.24%  0 sequences failed composition chi2 test (p-value<5%; df=3)
Reading tree All_Species_m2_AllMapped_edited.nwk ...
un-rooted tree with 26 taxa and 49 branches
Computing site concordance factor...
0.006 sec
Tree with concordance factors written to concord_pseudogene_ref.cf.tree
Annotated tree (best viewed in FigTree) written to concord_pseudogene_ref.cf.tree.nex
Tree with branch IDs written to concord_pseudogene_ref.cf.branch
Concordance factors per branch printed to concord_pseudogene_ref.cf.stat
Date and Time: Mon May  3 12:02:31 2021
